GPI-SOM statistics

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Citations per year

Number of citations per year for the bioinformatics software tool GPI-SOM
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Tool usage distribution map

This map represents all the scientific publications referring to GPI-SOM per scientific context
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GPI-SOM specifications

Information


Unique identifier OMICS_07285
Name GPI-SOM
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Pascal Mäeser

Information


Unique identifier OMICS_07285
Name GPI-SOM
Interface Web user interface
Restrictions to use None
Programming languages C
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Pascal Mäeser

Publication for GPI-SOM

GPI-SOM citations

 (58)
library_books

Pathogenic adaptations of Colletotrichum fungi revealed by genome wide gene family evolutionary analyses

2018
PLoS One
PMCID: 5915685
PMID: 29689067
DOI: 10.1371/journal.pone.0196303

[…] ng Colletotrichum sequences (cut-off e-value, 1E-05).Secretomes were identified using a procedure similar to that previously reported [], in which SignalP version 4.1 [], TMHMM Server version 2.0 [], GPI-SOM [] and WoLF PSORT [] were run sequentially. Putative proteases were identified and classified by BLASTP querying against the MEROPS database (http://merops.sanger.ac.uk/) with a cut-off e-valu […]

library_books

Lipophosphoglycan 3 From Leishmania infantum chagasi Binds Heparin With Micromolar Affinity

2018
Bioinform Biol Insights
PMCID: 5858678
PMID: 29568220
DOI: 10.1177/1177932218763363

[…] med in pBLAST implemented in TritrypDB. The signal peptide prediction was performed using SignalP 4.1 server,, and the presence of glycosylphosphatidylinositol (GPI)-anchor regions was assessed using GPI-SOM 1.5, big-PI Predictor, and PredGPI-GPI. To predict regions with N- and O-linked glycosylation, we used the NetNGlyc 1.0 and NetOGlyc 4.0 servers, respectively. The search for domains was perfo […]

library_books

Characterization of the Theileria parva sporozoite proteome

2018
PMCID: 5854367
PMID: 29258832
DOI: 10.1016/j.ijpara.2017.09.007

[…] the sporozoite using TargetP (). Trans-membrane domains (TMDs) were predicted by TMHMM Server v. 2.0 (), signal peptides (SP) by SignalP 4.1 () and glycosylphosphatidylinositol (GPI)-anchor signal by GPI-SOM (). […]

library_books

Identifying Potential Plasmodium vivax Sporozoite Stage Vaccine Candidates: An Analysis of Genetic Diversity and Natural Selection

2018
Front Genet
PMCID: 5788960
PMID: 29422913
DOI: 10.3389/fgene.2018.00010

[…] al peptide presence; the BaCelLo algorithm (Pierleoni et al., ) was used for predicting antigen location. Transmembrane and/or GPI domains were evaluated with Phobius, TMHMM (Sonnhammer et al., ) and GPI-SOM (Fankhauser and Maser, ) and the Pfam database was searched for putative domains. […]

library_books

Mechanisms of Surface Antigenic Variation in the Human Pathogenic Fungus Pneumocystis jirovecii

2017
MBio
PMCID: 5676039
PMID: 29114024
DOI: 10.1128/mBio.01470-17

[…] introns (, ), were identified by visual inspection of the alignments and sequences of the genes. Signal peptide and GPI anchor signal were identified using Phobius (http://phobius.sbc.su.se/) () and GPI-SOM (http://gpi.unibe.ch/) (), respectively, with default settings. Canonical potential sites NXS/T of nitrogen-linked glycosylation () were identified by visual inspection. Conserved domains were […]

library_books

Two novel cross protective antigens for bovine Pasteurella multocida

2017
PMCID: 5647017
PMID: 28791368
DOI: 10.3892/mmr.2017.7153

[…] nome database. A total of 6 protein sequences were matched and are presented in . These protein sequences were predicted as secretory proteins using TMHMM Server.2.0 (), SignalPv3.0 (), PSORTb () and GPI-SOM (). A total of 6 protein sequences contained a signal peptide, and 3 secretory proteins were predicted from the bioinformatics analysis (). Using the aforementioned combined analyses, 6 protei […]


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GPI-SOM institution(s)
Institute of Cell Biology, University of Bern, Switzerland

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